TABLE 1.
Thirty bacterial organisms were analyzed in silico to examine how many Illumina-generated sequences would not be amenable to definitive mapping to the genome (i.e., would have more than one possible mapped location), if the genomic library is prepared in the current system (TA plus N14) or the proposed system (N12 plus TA plus N12), assuming full saturation of the transposon librarya
| Organism | Genome length (mbp) | GC content (%) | No. of “TA” within the genome (log10) | Total no. of equivocally identified insertions |
Accession no. | ||
|---|---|---|---|---|---|---|---|
| Current system (TA + 14N) | Proposed system (12N + TA + 12N) | Ratio | |||||
| Clostridium botulinum | 4.39 | 28.02 | 5.75 | 141,087 | 19,134 | 7.37 | NZ_CP013243.1 |
| Clostridium tetani | 2.8 | 28.75 | 5.54 | 57,502 | 13,032 | 4.41 | NC_004557.1 |
| Bacillus anthracis | 5.23 | 35.38 | 5.66 | 36,130 | 9,786 | 3.69 | NC_003997.3 |
| Clostridioides difficile | 4.29 | 29.06 | 5.71 | 114,432 | 36,798 | 3.11 | NC_009089.1 |
| Bacillus cereus | 5.42 | 35.28 | 5.68 | 45,823 | 16,580 | 2.76 | NZ_CP034551.1 |
| Streptomyces avermitilis | 9.03 | 70.72 | 5.00 | 12,865 | 5,442 | 2.36 | NC_003155.5 |
| Sorangium cellulosum | 13.03 | 71.38 | 5.06 | 17,638 | 7,566 | 2.33 | NC_010162.1 |
| Streptomyces coelicolor | 8.67 | 72.12 | 4.93 | 13,307 | 5,934 | 2.24 | NC_003888.3 |
| Staphylococcus aureus | 2.82 | 32.87 | 5.43 | 23,371 | 10,712 | 2.18 | NC_007795.1 |
| Pseudomonas aeruginosa | 6.26 | 66.56 | 4.97 | 10,147 | 5,026 | 2.02 | NC_002516.2 |
| Enterococcus faecalis | 3.15 | 37.23 | 5.35 | 14,578 | 7,342 | 1.99 | NZ_CP041738.1 |
| Chlamydia pneumoniae | 1.23 | 40.58 | 4.93 | 1,421 | 730 | 1.95 | NC_005043.1 |
| Bacteroides fragilis | 5.28 | 43.27 | 5.54 | 21,016 | 11,852 | 1.77 | NC_006347.1 |
| Acinetobacter baumannii | 3.98 | 39.17 | 5.46 | 23,498 | 14,118 | 1.66 | NZ_CP046654.1 |
| Bacillus subtilis | 4.22 | 43.51 | 5.34 | 10,574 | 6,482 | 1.63 | NC_000964.3 |
| Helicobacter pylori | 1.68 | 38.83 | 5.06 | 14,117 | 9,018 | 1.57 | NZ_LS483488.1 |
| Pseudomonas fluorescens | 6.52 | 59.98 | 5.16 | 10,783 | 7,186 | 1.50 | NZ_LS483372.1 |
| Mycobacterium smegmatis | 6.99 | 67.4 | 4.89 | 10,530 | 7,140 | 1.47 | NC_008596.1 |
| Mycoplasma pneumoniae | 0.82 | 40.01 | 4.75 | 7,242 | 4,940 | 1.47 | NC_000912.1 |
| Salmonella enterica | 4.81 | 52.09 | 5.36 | 15,433 | 10,464 | 1.47 | NC_003198.1 |
| Escherichia coli | 4.64 | 50.79 | 5.33 | 14,977 | 10,484 | 1.43 | NC_000913.3 |
| Brucella abortus | 2.12 | 57.16 | 4.71 | 3,891 | 2,868 | 1.36 | NC_007618.1 |
| Azotobacter vinelandii | 5.37 | 65.68 | 4.92 | 14,076 | 10,640 | 1.32 | NC_012560.1 |
| Streptococcus pneumoniae | 2.11 | 39.73 | 5.14 | 19,811 | 15,148 | 1.31 | NZ_LN831051.1 |
| Vibrio cholerae | 4.08 | 47.69 | 5.28 | 15,701 | 12,536 | 1.25 | NZ_CP010812.1 |
| Bartonella henselae | 1.93 | 38.23 | 5.11 | 21,120 | 17,368 | 1.22 | NC_005956.1 |
| Yersinia pestis | 4.71 | 47.7 | 5.43 | 35,855 | 29,474 | 1.22 | NZ_CP033699.1 |
| Chlamydia trachomatis | 1.04 | 41.31 | 4.84 | 1,848 | 1,530 | 1.21 | NC_000117.1 |
| Streptococcus agalactiae | 2.28 | 35.8 | 5.28 | 24,794 | 20,444 | 1.21 | NZ_CP026082.1 |
| Shigella flexneri | 4.61 | 50.89 | 5.32 | 42,683 | 38,414 | 1.11 | AE005674.2 |
| Mean | 26,541.67 | 12,272.93 | 2.05 | ||||
a
The factor by which the number of ambiguous sequences is reduced for each organism is shown (“Ratio”) (mean of reduction factors, 2.05).